glmM (PA4749, Q9HV50) review notes

Review session 2026-11-05 (PseudoCAP IBA-seed protocol, tier 2)

Fetched with just fetch-gene PSEAE Q9HV50 --alias glmM; accession matches the worklist.
No deep-research provider was used; PubMed esearch unavailable. Seed paper PMID:10913078 full
text (PMC94616) cached and read.

Literature

PMID:10913078 (Tavares et al. 2000): PA4749 (ORF540) encodes GlmM; it complements an E. coli
glmM thermosensitive mutant; His6-GlmM purified, specific activity similar to E. coli GlmM;
PMID:10913078; PMID:10913078. AlgC is the dedicated PMM/PGM of P. aeruginosa.

Annotation decisions

GO:0008966 (IBA, IDA seed, IEA), GO:0009252 (IBA, IDA seed, IEA), GO:0006048 (IBA),
GO:0005829 (IBA), GO:0000287 (IEA): ACCEPT.
GO:0004615 PMM (IBA, IDA seed, IEA): KEEP_AS_NON_CORE (genuine 20% secondary activity,
conserved in E. coli GlmM, but not the evolved function; does not replace AlgC).
GO:0004614 PGM (IDA, IEA): MARK_AS_OVER_ANNOTATED (2% side activity; AlgC dedicated).
GO:0005975 (IEA): MODIFY to GO:0006048. GO:0016868 (IEA): TOO_GENERAL.
Action counts: ACCEPT 9, KEEP_AS_NON_CORE 3, MARK_AS_OVER_ANNOTATED 2, MODIFY 1, TOO_GENERAL 1.

PseudoCAP IBA-seed assessment

PTN node	node term	n_seeds	leaf IBAs	seed annotation (term, evidence, PMID)	verdict	rationale	other seeds	IBD stands without this seed?
PTN001096974	GO:0004615 phosphomannomutase activity	2	136 (85 taxa)	GO:0004615, IDA, PMID:10913078 (PseudoCAP)	SOUND	Measured on purified enzyme (20% of GlmM activity). It is a secondary activity, so the GlmM rows are kept as non-core, but the row faithfully records the assay.	T. kodakarensis PGM/PMM Q68BJ6 (bifunctional; UniProt now places it in PTHR43771)	Yes: the deep node includes bona fide PMMs (ManB, RfbK, Pmm) and Q68BJ6; GlmM leaves (30 of 136) retain a measurable PMM side activity. Placement is arguable (suggested question), no defect.
PTN000501735	GO:0008966 phosphoglucosamine mutase activity	2	38 (36 taxa)	GO:0008966, IDA, PMID:10913078 (PseudoCAP)	SOUND	Purified enzyme activity plus complementation of E. coli glmM.	E. coli GlmM P31120	Yes
PTN000501735	GO:0009252 peptidoglycan biosynthetic process	2	32 (31 taxa)	GO:0009252, IDA, PMID:10913078 (PseudoCAP)	SOUND	Restores peptidoglycan synthesis in the E. coli mutant; the enzyme catalyses a precursor step (evidence is complementation, nearer IGI than IDA, but the claim is right).	E. coli GlmM P31120	Yes

No PSEUDOCAP or GO_CENTRAL defect on glmM.